Audio regions out of sequence when booting up

I have experienced a problem over the last few years that I was wondering if anyone else has. After working for many hours on a mix, and being happy with the results,then closing down the computer, the next time I reboot the system, the audio files have rearranged themselves in the arrange window. Often hundreds of duplicates are made stacked on top of each other. Original regions often are no longer where they are supposed to be.
Believe me, I am not stoned or intoxicated!
What could be causing this problem?
G5 Dual 2G   Mac OS X (10.4.4)   7 Gigs of Ram

It might depend on what version of Logic you're using.

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